Here is another quick video showing what im talking about using the same file as before. I was having a ton of similar problems a week ago so I rebuilt several parts and I am wondering if something like this was the cause, and if so how can I fix it/prevent it from happening again?

https://www.youtube.com/watch?v=IzfUZ6z_Ig8

I didn't realize the deviations I was stressing over were so small. I have been building with object/straight snap and am concerned that they don't seem to perfectly snap every time, but also realize that at those sizes it doesn't really matter anyway.
I really appreciate all the help. It is awesome that there are people willing to answer questions from people as green as me.